SMTL ID : 2bwy.1

Glu383Ala Escherichia coli Aminopeptidase P

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

8 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 5 residues within 4Å: Chain A: D.271, H.354, E.406 Ligands: MN.2, SO4.5 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.271, A:H.354, A:E.406, H2O.8 MN.2: 6 residues within 4Å: Chain A: Y.229, D.260, D.271, T.273, E.406 Ligands: MN.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.260, A:D.260, A:D.271, A:E.406 MN.6: 5 residues within 4Å: Chain B: D.271, H.354, E.406 Ligands: MN.7, SO4.10 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.271, B:H.354, B:E.406, H2O.15 MN.7: 6 residues within 4Å: Chain B: Y.229, D.260, D.271, T.273, E.406 Ligands: MN.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.260, B:D.260, B:D.271, B:E.406 MN.11: 5 residues within 4Å: Chain C: D.271, H.354, E.406 Ligands: MN.12, SO4.15 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.271, C:H.354, C:E.406, H2O.22 MN.12: 6 residues within 4Å: Chain C: Y.229, D.260, D.271, T.273, E.406 Ligands: MN.11 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:D.260, C:D.260, C:D.271, C:E.406 MN.16: 5 residues within 4Å: Chain D: D.271, H.354, E.406 Ligands: MN.17, SO4.20 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.271, D:H.354, D:E.406, H2O.29 MN.17: 6 residues within 4Å: Chain D: Y.229, D.260, D.271, T.273, E.406 Ligands: MN.16 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:D.260, D:D.260, D:D.271, D:E.406

4 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: E.396, R.399 No protein-ligand interaction detected (PLIP) MG.8: 2 residues within 4Å: Chain B: E.396, R.399 No protein-ligand interaction detected (PLIP) MG.13: 2 residues within 4Å: Chain C: E.396, R.399 No protein-ligand interaction detected (PLIP) MG.18: 2 residues within 4Å: Chain D: E.396, R.399 No protein-ligand interaction detected (PLIP)

4 x FLC: CITRATE ANION(Non-covalent)

FLC.4: 4 residues within 4Å: Chain A: R.186, M.193, R.221, H.222 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.221 Salt bridges: A:R.186, A:R.186, A:H.222, A:H.222 FLC.9: 4 residues within 4Å: Chain B: R.186, M.193, R.221, H.222 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.221 Salt bridges: B:R.186, B:R.186, B:H.222, B:H.222 FLC.14: 4 residues within 4Å: Chain C: R.186, M.193, R.221, H.222 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.221 Salt bridges: C:R.186, C:R.186, C:H.222, C:H.222 FLC.19: 4 residues within 4Å: Chain D: R.186, M.193, R.221, H.222 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:R.221 Salt bridges: D:R.186, D:R.186, D:H.222, D:H.222

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 5 residues within 4Å: Chain A: H.243, D.260, H.350, R.404 Ligands: MN.1 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:H.243, A:H.350, A:R.404 SO4.10: 5 residues within 4Å: Chain B: H.243, D.260, H.350, R.404 Ligands: MN.6 3 PLIP interactions: 3 interactions with chain B Salt bridges: B:H.243, B:H.350, B:R.404 SO4.15: 5 residues within 4Å: Chain C: H.243, D.260, H.350, R.404 Ligands: MN.11 3 PLIP interactions: 3 interactions with chain C Salt bridges: C:H.243, C:H.350, C:R.404 SO4.20: 5 residues within 4Å: Chain D: H.243, D.260, H.350, R.404 Ligands: MN.16 3 PLIP interactions: 3 interactions with chain D Salt bridges: D:H.243, D:H.350, D:R.404

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Graham, S.C. et al., Kinetic and Crystallographic Analysis of Mutant Escherichia Coli Aminopeptidase P: Insights Into Substrate Recognition and the Mechanism of Catalysis. Biochemistry (2006)

Release Date

2006-01-25

Peptides

AMINOPEPTIDASE P: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

AMINOPEPTIDASE P

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